Event cost regions
This figure shows an example of the event cost regions that eMPRess displays when the user selects "View cost space". This example is for the gopher-louse dataset. The cost of a loss event is fixed at 1.0 and the plot shows the range of costs of duplications (x-axis) and transfers (y-axis) relative to cost of a loss event. The range here is from 0.5 to 10.
In this example, there are five regions. Any set of costs in a given region will give the same solutions. For example, duplication and transfer costs of 2 correspond to the point (2, 2) in the red region. But, but the point (6, 2) is also in that region and corresponds to duplication and transfer costs of 6 and 2 respectively. Because those costs are in the same region, they'll result in the same set of MPRs. There's no need to choose more than one point in a region.
The legend shows that in the red region there are two MPRs. That is, for any set of event costs that we choose there, we'll get two MPRs whose costs are the same. The indicator <6,0,3,1> in the legend indicates that those two MPRs will each have 6 cospeciations, 0 duplications, 3 transfers, and 1 loss.
Note that there are two "degenerate" regions, that is regions that are either points or lines. These regions sometimes arise and, when they do, they are at the intersection of the boundaries of other regions. A point region is often not even visible in the plot.